Genomic Nucleosome Organization Reconstituted with Pure Proteins

Research output: Contribution to journalJournal articleResearchpeer-review

  • Krietenstein, Nils
  • Megha Wal
  • Shinya Watanabe
  • Bongsoo Park
  • Craig L Peterson
  • B Franklin Pugh
  • Philipp Korber

Chromatin remodelers regulate genes by organizing nucleosomes around promoters, but their individual contributions are obfuscated by the complex in vivo milieu of factor redundancy and indirect effects. Genome-wide reconstitution of promoter nucleosome organization with purified proteins resolves this problem and is therefore a critical goal. Here, we reconstitute four stages of nucleosome architecture using purified components: yeast genomic DNA, histones, sequence-specific Abf1/Reb1, and remodelers RSC, ISW2, INO80, and ISW1a. We identify direct, specific, and sufficient contributions that in vivo observations validate. First, RSC clears promoters by translating poly(dA:dT) into directional nucleosome removal. Second, partial redundancy is recapitulated where INO80 alone, or ISW2 at Abf1/Reb1sites, positions +1 nucleosomes. Third, INO80 and ISW2 each align downstream nucleosomal arrays. Fourth, ISW1a tightens the spacing to canonical repeat lengths. Such a minimal set of rules and proteins establishes core mechanisms by which promoter chromatin architecture arises through a blend of redundancy and specialization.

Original languageEnglish
JournalCell
Volume167
Issue number3
Pages (from-to)709-721.e12
ISSN0092-8674
DOIs
Publication statusPublished - 20 Oct 2016
Externally publishedYes

Bibliographical note

Copyright © 2016 Elsevier Inc. All rights reserved.

    Research areas

  • Adenosine Triphosphatases/chemistry, Chromatin/chemistry, Chromatin Assembly and Disassembly, DNA, Fungal/chemistry, DNA-Binding Proteins/chemistry, Genome, Fungal, Histones/chemistry, Nucleosomes/chemistry, Poly dA-dT/chemistry, Protein Biosynthesis, Saccharomyces cerevisiae/genetics, Saccharomyces cerevisiae Proteins/chemistry, Transcription Factors/chemistry

ID: 301927082